We were experiencing some lag issues around 3:00am UTC, these lag issues are resolved.
Turned out te be a backup feature from my VPS host, they were taking a snapshot of my VPS around that time and deleting a old snapshot.
We have turned off this feature and will backup when there are no players online.

Q: Whats a hash and a root password?
A: hash gets you high, root password gives you god powers, combine the 2 and you are invincible.